RetrogeneDB ID: retro_ogar_1883

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873571.1:12586531..12586993(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: CNOT7
• Ensembl ID: ENSOGAG00000006324
• Aliases: None
• Description: CCR4-NOT transcription complex, subunit 7 [Source:HGNC Symbol;Acc:14101]

Sequence

>retro_ogar_1883
GTGCCCTCACTAACTGTAGATCATAGCAAAGAATTTGTGAAGTTTGGGCTTCCAACCTGGATGAAAAGATTCATCAAGTT
ATTAGAAAATATGATTATGTTGTATGGACATCAAGTTTCCAGGTGTGGTTGCAAGATGCACTGGAGAAATTCAGGAGCAA
GGCTGACTATCGGTACCAACTATTGCGATGTGATGTAGACTTGTTAAAGACAATTGAGCTACAACTGACGATGCTTATGA
ATGAGCAAGGAGAATATTCTCCAGGAACTTCAACTTGGCAGTTTAAATTTAAATTTAATTTGACAGAAGACATGGATGCC
TAGCTCTCTATAGAGCTACTAACACCTGGTATGCAGTTTAAAAAACATGAAGAGAAAGGAATTGATAGCCAGTACTTTGC
AGAACTTCATGTGACTTCAGGAGTGGTCCCTCTGTGATAGGGTCAAATGCTTGTCATTTCAT

Alignment

ORF - retro_ogar_1883 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.07 %
• Parental protein coverage: 55.09 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  MPAATVDHS-QRICEVWACNLDEEMKKIRQVIRKYNYV-AMDTEFPGVVARPIGE-FRSNADYQYQLLRC
          .P..TVDHS.QRICEVWA.NLDE...KI.QVIRKY.YV..MD..FPGVVAR..GE.FRS.ADY.YQLLRC
Retrocopy VPSLTVDHS<QRICEVWASNLDE---KIHQVIRKYDYV<CMDIKFPGVVARCTGE>FRSKADYRYQLLRC

Parental  NVDLLKIIQLGLT-FMNEQGEYPPGTSTWQFNFKFNLTEDMYAQDSIELLTTSGIQFKKHEEEGIETQYF
          .VDLLK.I.L.LT..MNEQGEY.PGTSTWQF.FKFNLTEDM.A..SIELL.T.G.QFKKHEE.GI..QYF
Retrocopy DVDLLKTIELQLTMLMNEQGEYSPGTSTWQFKFKFNLTEDMDA*LSIELL-TPGMQFKKHEEKGIDSQYF

Parental  AELLMTSGVV-LCEGVKWLSFH
          AEL..TSGVV.LC..VK.LSFH
Retrocopy AELHVTSGVV>LCDRVKCLSFH

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Otolemur garnettii was not studied using RNA-Seq expression data.

ChIP-Seq

Otolemur garnettii was not studied using ChIP-Seq data.

EST

Otolemur garnettii was not studied using EST data.

TSS

Otolemur garnettii was not studied using FANTOM5 data.

Lab

retro_ogar_1883 was not experimentally validated.

Homology

Retrocopy orthology:

Otolemur garnettii does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

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Parental genes homology:

Parental genes homology involve 12 parental genes, and 21 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000000677	4 retrocopies	retro_chof_1431, retro_chof_1581, retro_chof_822, retro_chof_963,
Callithrix jacchus	ENSCJAG00000011795	1 retrocopy	retro_cjac_720,
Felis catus	ENSFCAG00000000591	1 retrocopy	retro_fcat_1889,
Homo sapiens	ENSG00000198791	2 retrocopies	retro_hsap_211, retro_hsap_4851,
Macaca mulatta	ENSMMUG00000001873	1 retrocopy	retro_mmul_2592,
Mustela putorius furo	ENSMPUG00000017972	1 retrocopy	retro_mputfur_1596,
Nomascus leucogenys	ENSNLEG00000002489	2 retrocopies	retro_nleu_1860, retro_nleu_2373,
Oryctolagus cuniculus	ENSOCUG00000014589	1 retrocopy	retro_ocun_118,
Otolemur garnettii	ENSOGAG00000006324	2 retrocopies	retro_ogar_1883 , retro_ogar_505,
Pongo abelii	ENSPPYG00000018385	2 retrocopies	retro_pabe_3771, retro_pabe_428,
Sarcophilus harrisii	ENSSHAG00000011828	2 retrocopies	retro_shar_103, retro_shar_631,
Ictidomys tridecemlineatus	ENSSTOG00000009175	2 retrocopies	retro_itri_1729, retro_itri_1730,